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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgtctttcaggagtaaatatcttctatagtaccattcattcatttcatcgcaagtgatatttacccatttgttgcagGCACCAGAACTGTAGGTGTGATAAGTAAAGTTGATCAAGCAGAAGGAGATGCAAAAACTATAGCTTGTGTTCAGGCCCTTCTGTCGAATAAGGGCCCAAA

Basic information

species Oryza sativa
transcript LOC_Os06g13820.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g13820.2 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G157462_T01 (Zea mays), 3'ss of exon 6
gtctgtctttcaggagtaaatatcttctatagtaccatt-cattcatttcatcgcaagtgatatttacccatttgttgca------gGCACCAGAACTGTAGGTGTGATAAGTAAAGTTGATCAAGCAGAAGGAGATGCAAAAACTATAGCTTGTGTTCAGGCCCTTCTGTCGAATAAGGGCCCAAA
|||||||||     |  |||||||  |  || |  |||| |  |  | | || | || |||| | |   ||||   || |      || || ||||| || ||||| ||||| ||||||||||||||| | |||||||||||||||||||| |||||||||||||| ||||| || |||||||||||
gtctgtcttatctta--aaatatca-cggtaatttcattgccattgtattatagaaactgatgtattttcattcactgtaactgtagGGACAAGAACAGTTGGTGTTATAAGCAAAGTTGATCAAGCAAATGGAGATGCAAAAACTATAGCCTGTGTTCAGGCCCTACTGTCAAACAAGGGCCCAAA
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|58653931|gb|CK042611.1|CK042611
EST:     GGATATTGATGCAGATG                         GCACCAGAACTGTAGGTGTGAT-AGTAAAGTTGATCAAGCAGAAGGAGAGT
genomic: GGATATTGATGCAGATGgtctgtcttt ... tttgttgcagGCACCAGAACTGTAGGTGTGATAAGTAAAGTTGATCAAGCAGAAGGAGA-T
EST: gi|88731149|gb|CI754762.1|CI754762
EST:     TGTTGCGTCATCTCGAGCTCTTAGGCTGGCCAAGGATATTGATGCAGATG                         GCACCAGAACTGTAGGTGTGATAAGTAAAGTTGATCAAGCAGAAGGAGATG
genomic: TGTTGCGTCATCTCGAGCTCTTAGGCTGGCCAAGGATATTGATGCAGATGgtctgtcttt ... tttgttgcagGCACCAGAACTGTAGGTGTGATAAGTAAAGTTGATCAAGCAGAAGGAGATG
EST: gi|29633691|gb|CB638700.1|CB638700
EST:     GTCATCTCGAGCTCTTAGGCTGGCCAAGGATATTGATGCAGATG                         GCACCAGAACTGTAGGTGTGATAAGTAAAGTTGATCAAGCAGAAGGAGATG
genomic: GTCATCTCGAGCTCTTAGGCTGGCCAAGGATATTGATGCAGATGgtctgtcttt ... tttgttgcagGCACCAGAACTGTAGGTGTGATAAGTAAAGTTGATCAAGCAGAAGGAGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctatagtaccattcattcatttcatcgcaagtgatatttacccatttgttgcagGCACCAGAACTGTAGGTGTGATAAGTAAAGTTGATCAAGCAGAAGGAGATGCAAAAACTATAGCTTGTGTTCAGGCCCTTCTGTCGAATAAGGGCCCAAA
                                         cccattt  CT-rich tract
                                tgatattta  TA-rich tract